Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0017823

Physical Location & Seq

Genomic Coordinates Reverse (-)

38095846 .. 38097096

Gene Structure 1251 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG281100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 297 bp

ATGAAGCGAAGGGGAATTAAGCCTGATTACATTAGTTACAACACCCTCATTAGTGGACATAGTAAACGAGGTGAAATGAATGATGCCTTCAAAGTTCGAGACGAGATGTTGAGTATAGGTTTCAATCCTACACTTCTAACATACAATGCTCTTATAAAAGGTCTACGCAAAAACCAAGAAGGTGATCTTGCTCAAGAGCTCCTTAAAGAAATGGTGCTAAGAAGTTCAGCTTTTTGTGATTTGGACTCAGAAATCAATCACCTTTGGTACACTCATTTCGTACGTGCCCAGGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

98

Amino Acids

11.36

Weight (kDa)

7.89

Isoelectric Point (pI)

34.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	1 - 53	4.5e-12	Pentatricopeptide repeat domain
PPR_1	PF12854	4 - 36	6e-11	PPR repeat
PPR_2	PF13041	8 - 56	1.6e-15	PPR repeat family
PPR	PF01535	11 - 41	5.4e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0017823)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr6g0260611 RchiOBHm_Chr6g0271701
rosa_laevigata	RLG00000031539
rosa_multiflora	Rmu_sc0009952.1_g000009
rosa_roxburghii	Rroxscaffold_1G00018650 Rroxscaffold_2G00119930 Rroxscaffold_3G00248110
rosa_samantha	Rh2AG309200 Rh5AG281100 Rh5DG421500 Rh6CG076600 Rh6CG101100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	155
AccI	GTMKAC	1 cut(s)	163
AfaI	GTAC	2 cut(s)	269, 282
AgsI	TTSAA	2 cut(s)	91, 124
AjnI	CCWGG	1 cut(s)	288
AluBI	AGCT	2 cut(s)	199, 230
AluI	AGCT	2 cut(s)	199, 230
Alw21I	GWGCWC	1 cut(s)	201
Alw26I	GTCTC	1 cut(s)	93
AsuHPI	GGTGA	3 cut(s)	83, 194, 251
BaeGI	GKGCMC	1 cut(s)	289
BanII	GRGCYC	1 cut(s)	201
Bbv12I	GWGCWC	1 cut(s)	201
BciT130I	CCWGG	1 cut(s)	290
BcoDI	GTCTC	1 cut(s)	93
Bme1390I	CCNGG	1 cut(s)	290
BmrFI	CCNGG	1 cut(s)	290
BmsI	GCATC	1 cut(s)	73
BpuEI	CTTGAG	1 cut(s)	177
BsaAI	YACGTR	1 cut(s)	284
BsaJI	CCNNGG	1 cut(s)	288
BseBI	CCWGG	1 cut(s)	290
BseDI	CCNNGG	1 cut(s)	288
BseMII	CTCAG	1 cut(s)	261
BseSI	GKGCMC	1 cut(s)	289
BsiHKAI	GWGCWC	1 cut(s)	201
BsiWI	CGTACG	1 cut(s)	280
BsmAI	GTCTC	1 cut(s)	93
BsmBI	CGTCTC	1 cut(s)	93
Bsp1286I	GDGCHC	2 cut(s)	201, 289
Bsp143I	GATC	1 cut(s)	184
BspCNI	CTCAG	1 cut(s)	260
BssECI	CCNNGG	1 cut(s)	288
BssMI	GATC	1 cut(s)	184
Bst2UI	CCWGG	1 cut(s)	290
BstBAI	YACGTR	1 cut(s)	284
BstDEI	CTNAG	2 cut(s)	218, 247
BstKTI	GATC	1 cut(s)	187
BstMAI	GTCTC	1 cut(s)	93
BstMBI	GATC	1 cut(s)	184
BstNI	CCWGG	1 cut(s)	290
BstSCI	CCNGG	1 cut(s)	288
BstSLI	GKGCMC	1 cut(s)	289
Csp6I	GTAC	2 cut(s)	268, 281
CviJI	RGCY	3 cut(s)	22, 199, 230
CviKI_1	RGCY	3 cut(s)	22, 199, 230
CviQI	GTAC	2 cut(s)	268, 281
DdeI	CTNAG	2 cut(s)	218, 247
DpnI	GATC	1 cut(s)	186
DpnII	GATC	1 cut(s)	184
Ecl136II	GAGCTC	1 cut(s)	199
Eco24I	GRGCYC	1 cut(s)	201
Eco53kI	GAGCTC	1 cut(s)	199
EcoICRI	GAGCTC	1 cut(s)	199
EcoRII	CCWGG	1 cut(s)	288
EcoT38I	GRGCYC	1 cut(s)	201
Esp3I	CGTCTC	1 cut(s)	93
FaiI	YATR	4 cut(s)	60, 116, 142, 155
FalI	AAGNNNNNCTT	6 cut(s)	171, 203, 186, 218, 214, 246
FblI	GTMKAC	1 cut(s)	163
FriOI	GRGCYC	1 cut(s)	201
HinfI	GANTC	1 cut(s)	245
HphI	GGTGA	3 cut(s)	83, 194, 251
Hpy166II	GTNNAC	4 cut(s)	56, 65, 164, 270
Hpy188I	TCNGA	1 cut(s)	250
Hpy188III	TCNNGA	2 cut(s)	98, 194
Hpy8I	GTNNAC	4 cut(s)	56, 65, 164, 270
HpyAV	CCTTC	3 cut(s)	3, 97, 173
HpyCH4IV	ACGT	1 cut(s)	283
HpyF3I	CTNAG	2 cut(s)	218, 247
HpySE526I	ACGT	1 cut(s)	283
Kzo9I	GATC	1 cut(s)	184
LmnI	GCTCC	1 cut(s)	204
LpnPI	CCDG	2 cut(s)	36, 275
LweI	GCATC	1 cut(s)	73
MaeII	ACGT	1 cut(s)	283
MaeIII	GTNAC	1 cut(s)	35
MalI	GATC	1 cut(s)	186
MboI	GATC	1 cut(s)	184
MhlI	GDGCHC	2 cut(s)	201, 289
MluCI	AATT	1 cut(s)	15
MlyI	GAGTC	1 cut(s)	239
MnlI	CCTC	2 cut(s)	56, 62
MseI	TTAA	3 cut(s)	18, 204, 295
MspR9I	CCNGG	1 cut(s)	290
MvaI	CCWGG	1 cut(s)	290
NdeII	GATC	1 cut(s)	184
Pfl23II	CGTACG	1 cut(s)	280
PleI	GAGTC	1 cut(s)	239
PpsI	GAGTC	1 cut(s)	239
Ppu21I	YACGTR	1 cut(s)	284
PsiI	TTATAA	1 cut(s)	155
Psp124BI	GAGCTC	1 cut(s)	201
Psp6I	CCWGG	1 cut(s)	288
PspGI	CCWGG	1 cut(s)	288
PspLI	CGTACG	1 cut(s)	280
RsaI	GTAC	2 cut(s)	269, 282
RsaNI	GTAC	2 cut(s)	268, 281
SacI	GAGCTC	1 cut(s)	201
SaqAI	TTAA	3 cut(s)	18, 204, 295
Sau3AI	GATC	1 cut(s)	184
SchI	GAGTC	1 cut(s)	239
ScrFI	CCNGG	1 cut(s)	290
SduI	GDGCHC	2 cut(s)	201, 289
SetI	ASST	8 cut(s)	73, 121, 163, 184, 201, 232, 264, 286
SfaNI	GCATC	1 cut(s)	73
SgeI	CNNG	7 cut(s)	35, 80, 110, 115, 188, 200, 206
SmlI	CTYRAG	1 cut(s)	192
SmoI	CTYRAG	1 cut(s)	192
Sse9I	AATT	1 cut(s)	15
SstI	GAGCTC	1 cut(s)	201
StyD4I	CCNGG	1 cut(s)	288
TaiI	ACGT	1 cut(s)	286
TaqI	TCGA	1 cut(s)	97
TasI	AATT	1 cut(s)	15
Tru1I	TTAA	3 cut(s)	18, 204, 295
Tru9I	TTAA	3 cut(s)	18, 204, 295
TspDTI	ATGAA	2 cut(s)	17, 92
XmiI	GTMKAC	1 cut(s)	163

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.